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Investigate TOIL and GPFS #240

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allanbolipata opened this issue Aug 5, 2021 · 0 comments
Open

Investigate TOIL and GPFS #240

allanbolipata opened this issue Aug 5, 2021 · 0 comments

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@allanbolipata
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Not quite; it should tolerate a shared --workDir, because it consults /proc to find out what machine it is on and creates an arena named with (I think) the UUID of the current system boot. But the shared --workDir would have to have the same consistency guarantees and fcntl locking support as a "normal" (e.g. ext4) filesystem, so GPFS or some speed-optimized NFS configurations will not work.

DataBiosphere/toil#3497 (comment)

It seems like TOIL and GPFS might not play nice with each other. We need to look into this, otherwise we will have to come up with something to remedy this.

Most of these issues come from running helix filters/pluto-cwl, but it is concerning that sometimes it works and sometimes it doesn't.

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